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<p class="MsoNormal">Please post to the TDWG List:<o:p></o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoTitle" align="center" style="text-align:center"><b><span style="font-size:14.0pt;font-family:"Calibri",sans-serif">Computer Programmer<o:p></o:p></span></b></p>
<p class="MsoNormal"><a name="_Hlk82781048"><o:p> </o:p></a></p>
<p class="MsoNormal"><span style="mso-bookmark:_Hlk82781048">The Tulane University Biodiversity Research Institute (TUBRI) is a research center of Tulane’s School of Science and Engineering, located on the grounds of the F. Edward Hebert Research Center in
Belle Chasse, Louisiana, a suburb of New Orleans. TUBRI houses the Royal D. Suttkus Fish Collection and specializes in biodiversity discovery (primarily involving fishes) and biodiversity informatics research. Henry L. Bart, Jr., Professor of Ecology and Evolutionary
Biology serves as TUBRI Director and Yasin Bak</span><span style="mso-bookmark:_Hlk82781048"><span lang="TR">ýþ</span> is Senior Manager of Biodiversity Informatics and Data Engineering for the center.
<o:p></o:p></span></p>
<p class="MsoNormal"><span style="mso-bookmark:_Hlk82781048">A computer programmer is sought to build cyberinfrastructure for accessing, hosting and sharing images of fish specimens from institutional image repositories and iNaturalist for use by investigators
in the newly-funded, NSF Harnessing the Data Revolution Institute project entitled,
<i>Imageomics: A New Frontier of Biological Information Powered by Knowledge-Guided Machine Learning</i>. The images will be used in Machine-Learning based, taxonomic identification and morphological trait extraction experiments, aided by a fish anatomy ontology
and trees depicting phylogenetic relationships among tested fish species. <o:p></o:p></span></p>
<p class="MsoNormal"><span style="mso-bookmark:_Hlk82781048">The successful candidate will perform the following tasks in the Imageomics Institute Project under the supervision of Bart and Bak</span><span style="mso-bookmark:_Hlk82781048"><span lang="TR">ýþ</span>.</span><o:p></o:p></p>
<ol style="margin-top:0in" start="1" type="1">
<li class="MsoListParagraphCxSpFirst" style="margin-bottom:8.0pt;margin-left:0in;mso-add-space:auto;line-height:106%;mso-list:l1 level1 lfo1">
Create automation to process 700,000+ 2D images and associated metadata <o:p></o:p></li><li class="MsoListParagraphCxSpMiddle" style="margin-bottom:8.0pt;margin-left:0in;mso-add-space:auto;line-height:106%;mso-list:l1 level1 lfo1">
Extract morphological traits including segmentation, shape outlines of specimens, strings of pixels representing color/pigment patterns from different areas of the fish image, color palette data, histogram data etc. to verify species identity<o:p></o:p></li><li class="MsoListParagraphCxSpMiddle" style="margin-bottom:8.0pt;margin-left:0in;mso-add-space:auto;line-height:106%;mso-list:l1 level1 lfo1">
Build software for<o:p></o:p></li></ol>
<p class="MsoListParagraphCxSpMiddle" style="mso-margin-top-alt:0in;margin-right:0in;margin-bottom:8.0pt;margin-left:.65in;mso-add-space:auto;text-indent:-.25in;line-height:106%;mso-list:l1 level2 lfo1">
<![if !supportLists]><span style="mso-list:Ignore">a.<span style="font:7.0pt "Times New Roman"">
</span></span><![endif]>Extracting several different types of morphological features from fish images automatically<o:p></o:p></p>
<p class="MsoListParagraphCxSpMiddle" style="mso-margin-top-alt:0in;margin-right:0in;margin-bottom:8.0pt;margin-left:.65in;mso-add-space:auto;text-indent:-.25in;line-height:106%;mso-list:l1 level2 lfo1">
<![if !supportLists]><span style="mso-list:Ignore">b.<span style="font:7.0pt "Times New Roman"">
</span></span><![endif]>Calculating the subsets of features (morphological barcodes) useful for identifying clusterings of images based on Genetic Algorithms Feature Selection methods
<o:p></o:p></p>
<p class="MsoListParagraphCxSpMiddle" style="mso-margin-top-alt:0in;margin-right:0in;margin-bottom:8.0pt;margin-left:.65in;mso-add-space:auto;text-indent:-.25in;line-height:106%;mso-list:l1 level2 lfo1">
<![if !supportLists]><span style="mso-list:Ignore">c.<span style="font:7.0pt "Times New Roman"">
</span></span><![endif]>Implementing a Neural Network design for training computers in fish classification using the extracted morphological traits<o:p></o:p></p>
<p class="MsoListParagraphCxSpLast" style="mso-margin-top-alt:0in;margin-right:0in;margin-bottom:8.0pt;margin-left:.65in;mso-add-space:auto;text-indent:-.25in;line-height:106%;mso-list:l1 level2 lfo1">
<![if !supportLists]><span style="mso-list:Ignore">d.<span style="font:7.0pt "Times New Roman"">
</span></span><![endif]>Work collaboratively with other Imageomics Institute ML experts to explore deep-learning methods to capture species identification and trait data from other types of animal images.<o:p></o:p></p>
<p class="MsoNormal"><b><span style="font-size:12.0pt;color:#222222">Required Knowledge, Skills, and Abilities<o:p></o:p></span></b></p>
<ol style="margin-top:0in" start="1" type="1">
<li class="MsoListParagraphCxSpFirst" style="color:#222222;margin-bottom:0in;margin-left:0in;mso-add-space:auto;line-height:normal;mso-list:l0 level1 lfo2">
<span style="font-size:12.0pt">Image Processing <o:p></o:p></span></li><li class="MsoListParagraphCxSpMiddle" style="color:#222222;margin-bottom:0in;margin-left:0in;mso-add-space:auto;line-height:normal;mso-list:l0 level1 lfo2">
<span style="font-size:12.0pt">Artificial Intelligence/Neural Networks <o:p></o:p></span></li><li class="MsoListParagraphCxSpMiddle" style="color:#222222;margin-bottom:0in;margin-left:0in;mso-add-space:auto;line-height:normal;mso-list:l0 level1 lfo2">
<span style="font-size:12.0pt">Genetic Algorithms<o:p></o:p></span></li><li class="MsoListParagraphCxSpLast" style="color:#222222;margin-bottom:0in;margin-left:0in;mso-add-space:auto;line-height:normal;mso-list:l0 level1 lfo2">
<span style="font-size:12.0pt">Working knowledge of following languages (one from each group)<o:p></o:p></span></li></ol>
<p class="MsoNormal" style="margin-left:.5in"><span style="font-size:12.0pt;color:#222222">Java, C, C++, C#}, {Python, PHP, Perl}, {R, Bash, JavaScript}, {ORACLE SQL, MSSQL, PostgreSQL, MySQL}<o:p></o:p></span></p>
<ol style="margin-top:0in" start="5" type="1">
<li class="MsoListParagraphCxSpFirst" style="color:#222222;margin-bottom:0in;margin-left:0in;mso-add-space:auto;line-height:normal;mso-list:l0 level1 lfo2">
<span style="font-size:12.0pt">Unix based server management<o:p></o:p></span></li><li class="MsoListParagraphCxSpMiddle" style="color:#222222;margin-bottom:0in;margin-left:0in;mso-add-space:auto;line-height:normal;mso-list:l0 level1 lfo2">
<span style="font-size:12.0pt">Parallel programming (GPU)<o:p></o:p></span></li><li class="MsoListParagraphCxSpMiddle" style="color:#222222;margin-bottom:0in;margin-left:0in;mso-add-space:auto;line-height:normal;mso-list:l0 level1 lfo2">
<span style="font-size:12.0pt">Working knowledge of version control system (GIT)<o:p></o:p></span></li><li class="MsoListParagraphCxSpMiddle" style="color:#222222;margin-bottom:0in;margin-left:0in;mso-add-space:auto;line-height:normal;mso-list:l0 level1 lfo2">
<span style="font-size:12.0pt">Documenting the code <o:p></o:p></span></li><li class="MsoListParagraphCxSpMiddle" style="color:#222222;margin-bottom:0in;margin-left:0in;mso-add-space:auto;line-height:normal;mso-list:l0 level1 lfo2">
<span style="font-size:12.0pt">Ability to write clear, maintainable, portable code that conforms to standards and practices<o:p></o:p></span></li><li class="MsoListParagraphCxSpLast" style="color:#222222;margin-bottom:0in;margin-left:0in;mso-add-space:auto;line-height:normal;mso-list:l0 level1 lfo2">
<span style="font-size:12.0pt">Cross-platform experience<o:p></o:p></span></li></ol>
<p class="MsoNormal"><b><span style="font-size:12.0pt;color:#222222"><o:p> </o:p></span></b></p>
<p class="MsoNormal"><b><span style="font-size:12.0pt;color:#222222">Required Education and/or Experience<o:p></o:p></span></b></p>
<p class="MsoNormal"><span style="font-size:12.0pt;color:#222222">College degree (Associates or Bachelors) in Computer Science, Information Sciences, Biology, and related fields. Must have at least 3 years of programming experience<o:p></o:p></span></p>
<p class="MsoNormal"><b><span style="font-size:12.0pt;color:#222222">Preferred Qualifications<o:p></o:p></span></b></p>
<p class="MsoNormal"><span style="font-size:12.0pt;color:#222222">MSc or PhD in computational biology, bioinformatics, biology or a related field<o:p></o:p></span></p>
<p class="MsoNormal"><span style="font-size:12.0pt;color:#222222">Experience in web-database applications<o:p></o:p></span></p>
<p class="MsoNormal"><span style="font-size:12.0pt;color:#222222">Prior experience with Biological datasets<o:p></o:p></span></p>
<p class="MsoNormal"><span style="font-size:12.0pt;color:#222222"><o:p> </o:p></span></p>
<p class="MsoNormal"><b><span style="font-size:12.0pt;color:#222222">Other Requirements<o:p></o:p></span></b></p>
<p class="MsoNormal"><span style="font-size:12.0pt;color:#222222">The position is open to international candidates<o:p></o:p></span></p>
<p class="MsoNormal"><span style="font-size:12.0pt;color:#222222">Candidate should be able to travel internationally<o:p></o:p></span></p>
<p class="MsoNormal"><span style="font-size:12.0pt;color:#222222"><o:p> </o:p></span></p>
<p class="MsoNormal"><b><span style="font-size:12.0pt;color:#222222">Start date</span></b><span style="font-size:12.0pt;color:#222222">: The position is open for immediate hire. Preferred starting date is 4 February 2022<o:p></o:p></span></p>
<p class="MsoNormal"><span style="font-size:12.0pt;color:#222222"><o:p> </o:p></span></p>
<p class="MsoNormal"><span style="font-size:12.0pt;color:#222222">For additional information about the position, please contact Henry Bart (</span><a href="mailto:hbartjr@tulane.edu"><span style="font-size:12.0pt">hbartjr@tulane.edu</span></a><span style="font-size:12.0pt;color:#222222">)
or Yasin Bakiþ (</span><a href="mailto:ybakis@tulane.edu"><span style="font-size:12.0pt">ybakis@tulane.edu</span></a><span style="font-size:12.0pt;color:#222222">)<o:p></o:p></span></p>
<p class="MsoNormal"><span style="font-size:12.0pt;color:#222222"><o:p> </o:p></span></p>
<p class="MsoNormal"><span style="font-size:12.0pt;color:#222222">Apply here: </span>
<a href="https://jobs.tulane.edu/position/IRC22108" target="_blank"><span style="font-family:"Verdana",sans-serif">https://jobs.tulane.edu/position/IRC22108</span></a><o:p></o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal">Thank you!<o:p></o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal">Henry L. Bart Jr., Ph.D.<o:p></o:p></p>
<p class="MsoNormal">Director, Tulane University Biodiversity Research Institute<o:p></o:p></p>
<p class="MsoNormal">Curator, Royal D. Suttkus Fish Collection<o:p></o:p></p>
<p class="MsoNormal">3705 Main Street, Belle Chasse, LA 70037<o:p></o:p></p>
<p class="MsoNormal">Voice: 504-394-1711; Fax: 504-394-5045<o:p></o:p></p>
<p class="MsoNormal"> <o:p></o:p></p>
<p class="MsoNormal">Professor of Ecology and Evolutionary Biology, Tulane University<o:p></o:p></p>
<p class="MsoNormal">400 Lindy Boggs Hall, New Orleans, LA 70118<o:p></o:p></p>
<p class="MsoNormal">Voice: 504-862-8283; Fax 504-862-8706<o:p></o:p></p>
<p class="MsoNormal"> <o:p></o:p></p>
<p class="MsoNormal">Website: <a href="http://people.tubri.org/hank/"><span style="color:#0563C1">http://people.tubri.org/hank/</span></a><o:p></o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
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